jquery plays nicely with Yii. The framework already bundle jQuery in its distribution. You can call it (and jQuery UI also) with CClientScript. Most of jQuery UI goodies can be called as widgets: see in zii.widgets.jui under api documentation.
Bootstrap is alvailable as an extension (make a search in the extensions directory) , there are a couple of bootstrap related extensions. They gives you a convenient way to use bootstrap goodies as widgets.